Family Search for PF04765 (TOD1_MUCI70)

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PF04765 hits 11 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

MUC70_ARATH / Q9FZ97 Probable hexosyltransferase MUCI70; Protein MUCILAGE-RELATED 70; EC 2.4.1.- from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT1G28240 hypothetical protein from Arabidopsis thaliana
NP_174145 strawberry notch protein (DUF616) from Arabidopsis thaliana
Aligns to 195:508 / 581 (54.0%), covers 100.0% of PF04765, 503.9 bits

• function: Probable glycosyltransferase involved in pectin and/or xylans biosynthesis in cell walls (By similarity). Together with IRX14, required for xylan and pectin synthesis in seed coat epidermal (SCE) cells (PubMed:30228108). Collaboratively with GAUT11, essential for the accumulation of seed mucilage, a gelatinous wall rich in unbranched rhamnogalacturonan I (RG I), and for shaping the surface morphology of seeds (PubMed:30228108).
  disruption phenotype: Strong reduction of seed mucilage accumulation and major decrease in rhamnogalacturonan I (RG I), associated with reduced absolute levels of rhamnose (Rha), arabinose (Ara) and galacturonic acid (GalA) but increased absolute abundance of minor sugars (e.g. galactose (Gal), xylose (Xyl), glucose (Glc) and mannose (Man)) (PubMed:30228108). The double mutant muci70-1 gaut11-3 is completely defective in seed mucilage production and exhibits a strong release of minor sugars in total mucilage extracts (PubMed:30228108). Plants missing both MUCI70 and IRX14 exhibit a severe reduction in both xylan- and pectin-related sugars in total seed mucilage extracts (PubMed:30228108).
• Polymerization of the backbone of the pectic polysaccharide rhamnogalacturonan I
  Amos, Nature plants 2022
  • “...(RG-I:GalAT), the enzyme that transfers GalA to Rha-containing RG-I acceptors, has not been identified. Here, At1g28240, a gene encoding a protein currently annotated as MUCILAGE-RELATED70 (MUCI70), was selected as a candidate RG-I:GalAT. Similar to RRT1, MUCI70 was originally discovered due to its high expression in the...”
  • “...purify MUCI70 as a putative enzymatic source of RG-I:GalAT activity, the transmembrane-truncated coding region of At1g28240 was cloned into a vector for recombinant expression as a secreted protein in human embryonic kidney 293 (HEK293) cells. Mammalian HEK293 cells have been extensively developed as a system for...”
• Identification of Key Enzymes for Pectin Synthesis in Seed Mucilage
  Voiniciuc, Plant physiology 2018 (PubMed)
  • “...we also found one gene encoding a putative GT (At1g28240), which we named MUCI70, as a promising Plant Physiol. Vol. 178, 2018 candidate for pectin production...”
• A Genome Scan for Genes Underlying Microgeographic-Scale Local Adaptation in a Wild Arabidopsis Species
  Kubota, PLoS genetics 2015
  • “...to cold; detection of biotic stimulus; photosynthesis 11* AT2G33820 MBAC1 mitochondrial transport 12* AT4G04972 13 AT1G28240 14* AT2G41500 LIS meristem structural organization; seed dormancy process; response to freezing 15* AT4G27010 EMB2788 embryo sac egg cell differentiation; regulation of flower development; maintenance of meristem identity 16 AT1G33410...”
• Characterization of the plasma membrane proteins and receptor-like kinases associated with secondary vascular differentiation in poplar
  Song, Plant molecular biology 2011
  • “...Duf579 FU297 gw1.VII.2881.1 1 5 6 36120 At5g67210 Duf579 FU449 eugene3.01240052 1 0 1 66720 At1g28240 Duf616 FU273 estExt_fgenesh4_pm.C_LG_IX0699 1 1 1 43885 At2g28310 Duf707 FU185 eugene3.00570132 1 2 3 77002 At3g51050 Fg-gap repeat-containing protein FU605 eugene3.01200101 1 0 16 131690 No hit Tir-nbs-tir type disease...”
  • “...FU13 eugene3.00081921 1 3 0 75211 At3g06150 Unknown protein FU30 estExt_Genewise1_v1.C_LG_IV3066 1 2 0 66269 At1g28240 Unknown protein FU66 fgenesh4_pm.C_LG_I000553 1 1 0 50584 At3g16200 Unknown protein FU76 eugene3.00130055 3 1 0 20866 At1g09330 Unknown protein FU90 eugene3.00180117 1 1 0 44673 At5g11730 Unknown protein FU166...”
• Identification of Key Enzymes for Pectin Synthesis in Seed Mucilage.
  Voiniciuc, Plant physiology 2018
  • GeneRIF: Analysis of a muci70 gaut11 double mutant confirmed that MUCI70 and GAUT11 are indispensable for the production and release of the bulk of mucilage rhamnogalacturonan I and for shaping the surface morphology of seeds.

AT1G34550 EMB2756 (EMBRYO DEFECTIVE 2756) from Arabidopsis thaliana
Aligns to 402:721 / 735 (43.5%), covers 100.0% of PF04765, 485.5 bits

• Polymerization of the backbone of the pectic polysaccharide rhamnogalacturonan I
  Amos, Nature plants 2022
  • “...to function beyond mucilage synthesis in other tissues. Two genes from Clade B, At4g09630 and At1g34550 ( EMB2756 ), are highly expressed in seedlings and mature tissues ( Fig. 7b ). The enzymes coded for by these genes have relatively large amino acid chain lengths of...”
  • “...family members are transcribed in all Arabidopsis tissues 39 . One member of the family, At1g34550, is included within a curated dataset for mutants that result in an embryo-defective phenotype 43 . These mutants are classified by the production of defective seeds due to arrested embryonic...”
• The Mechanism Forming the Cell Surface of Tip-Growing Rooting Cells Is Conserved among Land Plants
  Honkanen, Current biology : CB 2016
  • “...yes Others/Unknown Function MpALBA alba-like DNA/RNA-binding protein AT1G76010 short rhizoids 5 MpEMB2756 DUF616-containing protein, ceramidase AT1G34550 short/few rhizoids 2 MpEXL1 EXORDIUM-like AT4G08950 short rhizoids 2 MpFBA1 fructose-bisphosphate aldolase AT4G38970 short rhizoids 4 MpGATA1 class A GATA zinc-finger transcription factor AT5G25830 short rhizoids 2 yes MpIRE AGC...”
• Partial Activation of SA- and JA-Defensive Pathways in Strawberry upon Colletotrichum acutatum Interaction
  Amil-Ruiz, Frontiers in plant science 2016
  • “...OBVIOUSLY RELATED TO DEFENSE RESPONSE M22B1 gene01044 AT2G25660 Embryo defective 2410 8.25 0 M18E11 gene27435 AT1G34550 Embryo defective 2756 6.55 0 M21E9 gene24023 AT2G24960 MRG family protein, chromatin binding 3.31 0 M7B12 gene07388 AT2G21170 Triosephosphate isomerase 2.96 7.60E-03 M24C11 gene32086 AT1G64385 Unknown protein, endomembrane system 2.88...”
• Identification of putative rhamnogalacturonan-II specific glycosyltransferases in Arabidopsis using a combination of bioinformatics approaches
  Voxeur, PloS one 2012
  • “...[47] and containing a DUF616 domain was selected in the filtering methodology. Three other genes (At1g34550, At4g09630, At5g42660) encoding proteins containing this domain were initially pre-selected but finally filtered out since they were not significantly overexpressed under isoxaben treatment ( Table S2 ). As a consequence,...”
• Characterization of the plasma membrane proteins and receptor-like kinases associated with secondary vascular differentiation in poplar
  Song, Plant molecular biology 2011
  • “...2 9 0 39135 At5g63050 Emb2759, embryo defective 2759 ST179 gw1.41.218.1 1 9 8 79168 At1g34550 Emb2756, embryo defective 2756 ST284* gw1.II.2836.1 5 6 5 43018 At3g25290 Auxin-responsive protein ST356 fgenesh4_pm.C_LG_IX000015 3 2 2 99384 At4g35290 Glutamate receptor Transporter (TR) TR531 gw1.I.4875.1 6 0 4 11815...”
  • “...FU167 eugene3.01340010 1 1 1 87295 At4g27290 Unknown protein FU187 gw1.XIX.2110.1 1 6 5 79107 At1g34550 Unknown protein FU214 eugene3.00141171 1 2 3 65644 At2g04280 Unknown protein FU252 estExt_fgenesh4_pm.C_LG_X0570 1 2 3 48530 At4g16170 Unknown protein FU267 eugene3.00160295 1 3 3 36620 At3g56750 Unknown protein FU269...”

AT4G09630 hypothetical protein from Arabidopsis thaliana
Aligns to 377:696 / 711 (45.0%), covers 100.0% of PF04765, 478.3 bits

• Polymerization of the backbone of the pectic polysaccharide rhamnogalacturonan I
  Amos, Nature plants 2022
  • “...is likely to function beyond mucilage synthesis in other tissues. Two genes from Clade B, At4g09630 and At1g34550 ( EMB2756 ), are highly expressed in seedlings and mature tissues ( Fig. 7b ). The enzymes coded for by these genes have relatively large amino acid chain...”
• Identification of putative rhamnogalacturonan-II specific glycosyltransferases in Arabidopsis using a combination of bioinformatics approaches
  Voxeur, PloS one 2012
  • “...and containing a DUF616 domain was selected in the filtering methodology. Three other genes (At1g34550, At4g09630, At5g42660) encoding proteins containing this domain were initially pre-selected but finally filtered out since they were not significantly overexpressed under isoxaben treatment ( Table S2 ). As a consequence, although...”

AT2G02910 hypothetical protein from Arabidopsis thaliana
Aligns to 142:449 / 460 (67.0%), covers 96.5% of PF04765, 460.5 bits

• Analysis of multiple occurrences of alternative splicing events in Arabidopsis thaliana using novel sequenced full-length cDNAs
  Iida, DNA research : an international journal for rapid publication of reports on genes and genomes 2009
  • “...related each other. Figure2 Examples of multiple occurrences of AS events. ( A ) The AT2G02910 locus which encodes a predicted hydrolase that acts on carbonnitrogen bonds. The transcript (MAS-001G06) retains introns 1, 2, 5 and 8 compared with AT2G02910.1. ( B ) The AT3G07300 locus...”

AT4G38500 hypothetical protein from Arabidopsis thaliana
Aligns to 139:443 / 499 (61.1%), covers 100.0% of PF04765, 431.5 bits

• Identification of putative rhamnogalacturonan-II specific glycosyltransferases in Arabidopsis using a combination of bioinformatics approaches
  Voxeur, PloS one 2012
  • “...like No PFAM At5g12260 44% 0.02 1359 1984 900 3047 Os01g18060 1035 19 839 DUF616 At4g38500 21,90% 0.04 7180 7086 2147 5157 Os06g50860 739 114 3909 DUF707 At1g61240 106,30% 0.04 3611 3980 15503 408 Os06g51520 245 340 80 At2g28310 338% <0.01 134 17 1724 542 Os02g19510...”
  • “...candidate gene families, either Arabidopsis or rice genes exhibit high MRs ( i.e. At1g14020, At1g61240, At4g38500, Os02g29530, Os09g30280 and Os11g36420 in Table 1 ) and were selected because their orthologues exhibited strong correlations with their relative guide genes. The reported expression levels of these genes are...”
• PlantGDB, plant genome database and analysis tools
  Dong, Nucleic acids research 2004
  • “...gene structure annotation: the 3-ends of genes At4g38500 and At4g38510 are annotated as overlapping at GenBank (dark blue), although several full-length...”
  • “...caused by assignment of single-exon 3-ESTs from At4g38500 transcripts to pseudo-transcripts of both At4g38500 and At4g38510. The importance of correct gene...”

AT5G42660 hypothetical protein from Arabidopsis thaliana
Aligns to 152:453 / 463 (65.2%), covers 96.5% of PF04765, 394.5 bits

• The Mechanism Forming the Cell Surface of Tip-Growing Rooting Cells Is Conserved among Land Plants
  Honkanen, Current biology : CB 2016
  • “...kinase AT5G62310 very short rhizoids 1 a yes yes MpSRI3 unknown protein, ceramide metabolic process AT5G42660 short rhizoids 2 MpTMT tonoplast monosaccharide transporter AT3G51490 short rhizoids 2 yes MpACLB-2 ATP citrate lyase subunit B AT5G49460 short rhizoids 1 MpCPR regulator of expression of pathogenesis-related (PR) genes...”
• Identification of putative rhamnogalacturonan-II specific glycosyltransferases in Arabidopsis using a combination of bioinformatics approaches
  Voxeur, PloS one 2012
  • “...containing a DUF616 domain was selected in the filtering methodology. Three other genes (At1g34550, At4g09630, At5g42660) encoding proteins containing this domain were initially pre-selected but finally filtered out since they were not significantly overexpressed under isoxaben treatment ( Table S2 ). As a consequence, although these...”
• Chlorophyll breakdown: pheophorbide a oxygenase is a Rieske-type iron-sulfur protein, encoded by the accelerated cell death 1 gene
  Pruzinská, Proceedings of the National Academy of Sciences of the United States of America 2003
  • “...At3g27180 At3g44880 At3g61320 At4g24860 At4g25650 At5g27010 At5g35570 At5g42660 At5g63390 At5g64710 Mr pl TM AtDB annotation 55,761 16,268 55,063 38,937 54,457...”

TOD1_ARATH / Q6DBD7 Alkaline ceramidase TOD1; Protein TURGOR REGULATION DEFECT 1; EC 3.5.1.23 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
Q6DBD7 ceramidase (EC 3.5.1.23) from Arabidopsis thaliana (see paper)
AT5G46220 hypothetical protein from Arabidopsis thaliana
Aligns to 103:409 / 462 (66.5%), covers 95.2% of PF04765, 377.3 bits

• function: Endoplasmic reticulum ceramidase that catalyzes the hydrolysis of ceramides into sphingosine and free fatty acids at alkaline pH (e.g. pH 9.5) (PubMed:25591940). Inactive on phytoceramide (PubMed:25591940). Involved in the regulation of turgor pressure in guard cells and pollen tubes (PubMed:25591940).
  catalytic activity: an N-acylsphing-4-enine + H2O = a fatty acid + sphing-4-enine (RHEA:20856)
  disruption phenotype: Increased turgor in pollen tubes associated with altered and delayed pollen tubes growth (PubMed:25591940). Short siliques resulting from severe sterility (PubMed:25591940). Insensitivity to abscisic acid (ABA)-induced stomatal closure in guard cells (PubMed:25591940). These phenotypes are partially restored by the disruption of GAUT13 (PubMed:25591940).
• Oligo-Carrageenan Kappa Increases Expression of Genes Encoding Proteins Involved in Photosynthesis, C, N, and S Assimilation, and Growth in Arabidopsis thaliana
  Méndez, International journal of molecular sciences 2023
  • “...AT1G75780 TUBB1 1.3 Pollen tube growth AT2G43750 OASB 1.6 AT5G04950 NAS1 2.4 AT1G09240 NAS3 2.8 AT5G46220 TOD1 4.3 Meristem growth AT1G27470 WD-40 1.1 Cell wall modification AT1G74670 GASA6 2.9 AT1G48100 PGLR4 2.8 developmental growth AT3G16175 TES 3.9 AT1G72880 SurE 1.2 AT1G04040 HAD 2.8 AT3G03820 SAUR29 9.7...”
• Polymerization of the backbone of the pectic polysaccharide rhamnogalacturonan I
  Amos, Nature plants 2022
  • “...members to RGGAT. The GT116 family is complicated by the existence of the family member At5g46220 (TOD1), which has previously been identified as having alkaline ceramidase activity 45 . In addition to the substrates being lipids rather than polysaccharides, this activity has notable differences from the...”
  • “...including mammals and Saccharomyces cerevisiae 45 . Future studies will be needed to determine whether At5g46220 (TOD1) is a GT116 family member with RG-I:GalAT activity or whether it should be categorized as a separate family of alkaline ceramidases. With the identification of RGGAT1, it is now...”
• Reannotation of the cultivated strawberry genome and establishment of a strawberry genome database
  Liu, Horticulture research 2021
  • “...into two genes (FxaC_11g03080 and FxaC_11g03081) in v1.0.a2; gene FxaC_11g03081 encodes a homolog of AtTOD1 (AT5G46220) acting in turgor pressure regulation in both guard cells and pollen tubes in Arabidopsis 31 (Fig. 3c ). Fig. 3 Examples of known genes with improved annotation. a IGV view...”
• The Arabidopsis alkaline ceramidase TOD1 is a key turgor pressure regulator in plant cells
  Chen, Nature communications 2015
  • “...Ds element. Sequencing indicated that the Ds element was inserted into the first exon of At5g46220 , 114-bp downstream of the ATG ( Fig. 2a ). The Ds insertion resulted in an 8-bp duplication (5-CTCTCAAG-3) at the insertion site. Furthermore, we were unable to detect TOD1...”
  • “...growth defect. In addition, SALK_110396, which harboured a T-DNA insertion in the first exon of At5g46220 ( Fig. 2a ), named tod1-2 , also displayed the similar phenotype as observed in tod1-1 . TOD1 is predicted to encode a 462-amino-acid protein, with a transmembrane domain (residues...”
• WRKY6 restricts Piriformospora indica-stimulated and phosphate-induced root development in Arabidopsis
  Bakshi, BMC plant biology 2015
  • “...TAZ DOMAIN PROTEIN 4 5.8 6.9 6.8 35.2 At3g09975 unknown protein 6.6 6.7 5.9 35.2 At5g46220 unknown protein 5.9 5.8 5.6 27.3.71 At4g29160 SNF7 5.6 5.9 5.8 26.21 At4g33355 lipid binding protein 5.7 5.1 5.8 21.4 At4g08550 electron carrier/ protein disulfide oxidoreductase 5.5 5.4 5.1 35.2...”

Tery_2268, YP_721969 glycosyl transferase, family 2 from Trichodesmium erythraeum IMS101
Aligns to 395:562 / 1600 (10.5%), covers 48.7% of PF04765, 67.2 bits

• Comparison of envelope-related genes in unicellular and filamentous cyanobacteria
  Yang, Comparative and functional genomics 2007
  • “...Glycosyl transferase, family 2 20407492041705 YP_721156 636817205 Tery_1372 Glycosyl transferase, family 2 21048282106021 YP_721969 636821740 Tery_2268 Glycosyl transferase, family 2 35296563534458 YP_722405 636824155 Tery_2749 Glycosyl transferase, family 2 42573144258822 YP_722496 636824655 Tery_2849 Glycosyl transferase, family 2 44303054432779 YP_722503 636824690 Tery_2856 Glycosyl transferase, family 2 44471854448186 YP_722586...”
  • “...636817045 Tery_1340 Glycosyl transferase, family 2 20407492041705 YP_721156 636817205 Tery_1372 Glycosyl transferase, family 2 21048282106021 YP_721969 636821740 Tery_2268 Glycosyl transferase, family 2 35296563534458 YP_722405 636824155 Tery_2749 Glycosyl transferase, family 2 42573144258822 YP_722496 636824655 Tery_2849 Glycosyl transferase, family 2 44303054432779 YP_722503 636824690 Tery_2856 Glycosyl transferase, family 2...”

Msm_1313 predicted glycosyltransferase (glycogen phosphorylase), GT1 family from Methanobrevibacter smithii ATCC 35061
Aligns to 15:257 / 855 (28.4%), covers 76.4% of PF04765, 67.2 bits

• Extensive Inter-Domain Lateral Gene Transfer in the Evolution of the Human Commensal Methanosphaera stadtmanae
  Lurie-Weinberger, Frontiers in genetics 2012
  • “...LGT BacteriaArchaea None Msp_0442 LGT BacteriaArchaea LGT BacteriaArchaea Msm_1594 LGT Msp_0492 LGT DU LGT N/A Msm_1313 Non-LGT Msp_0493 LGT BacteriaArchaea LGT BacteriaArchaea None Msp_0495 LGT DU LGT DU None Msp_0496 LGT DU* LGT DU* None Msp_0500 LGT DU* LGT DU* Msm_1312 LGT Msp_0538 LGT DU LGT...”

Msp_0492 predicted glycosyltransferase from Methanosphaera stadtmanae DSM 3091
Aligns to 555:790 / 1499 (15.7%), covers 58.3% of PF04765, 54.2 bits

• Extensive Inter-Domain Lateral Gene Transfer in the Evolution of the Human Commensal Methanosphaera stadtmanae
  Lurie-Weinberger, Frontiers in genetics 2012
  • “...N/A None Msp_0441 LGT BacteriaArchaea LGT BacteriaArchaea None Msp_0442 LGT BacteriaArchaea LGT BacteriaArchaea Msm_1594 LGT Msp_0492 LGT DU LGT N/A Msm_1313 Non-LGT Msp_0493 LGT BacteriaArchaea LGT BacteriaArchaea None Msp_0495 LGT DU LGT DU None Msp_0496 LGT DU* LGT DU* None Msp_0500 LGT DU* LGT DU* Msm_1312...”

BHWA1_02668 glycosyl transferase, family 2 from Brachyspira hyodysenteriae WA1
Aligns to 65:288 / 306 (73.2%), covers 55.7% of PF04765, 39.3 bits

• Absence of a set of plasmid-encoded genes is predictive of reduced pathogenic potential in Brachyspira hyodysenteriae
  La, Veterinary research 2014
  • “...epimerase/dehydratase P P P P P P A P P P A P P P BHWA1_02668 (3) glycosyl transferase, family 2 P P P P P P A P P P A P P P BHWA1_02669 (4) glycosyl transferase, group 1-like protein P P P P...”

Or search for genetic data about PF04765 in the Fitness Browser